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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaatgttttcttgtgaatccttttatcttcaaattaccaaattctgttatgttttgttctttgactcatttggttgtcttttggggaatgttgtttaaatgtttagACAGATTCTGACCTAATCGAAGGTCGTTGGCGATTGATGTTCACCACAAGACCTGGAACTGCATCTCCAATCCAA

Basic information

species Arabidopsis thaliana
transcript AT1G51110.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G44120.1 (Glycine max), 3'ss of exon 2
gtatgaaatgttttcttgtgaatccttttatcttcaaattaccaaattctgttatgttttgttctttgactcatttggttgtcttttggggaatgttgtttaaatgtttagACAGATTCTGACCTAATCGAAGGTCGTTGGCGATTGATGTTCACCACAAGACCTGGAACTGCATCTCCAATCCAA-----
          | ||||||   ||  |||| ||    | ||   |  ||           |  |  | | |        || ||  ||||   |||   ||||| | |  ||||| | ||  |  | ||||| ||||| ||||   | || |||||||||||||||||||||||||| || || ||      
----------tattcttgcacatatttttttccagtagttggaagtttggaaccgagcatactactaggcaagacaaatt-tccgttggtccatgaaatttaattctgcagACAAACTCAAATTTGATCGAGGGTCGCTGGCAGCTAATTTTCACCACAAGACCTGGAACTGCATCGCCCATTCAGTTTCT

upper sequence: AT1G51110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0004g01220.t01 (Vitis vinifera), 3'ss of exon 2
-gtatgaaatgtt-----ttcttgtgaatccttttatcttcaaattaccaaattctgttatgttttgttctttgactcatttggttgtcttttggggaatgttgtttaaatgtttagACAGATTCTGACCTAATCGAAGGTCGTTGGCGATTGATGTTCACCACAAGACCTGGAACTGCATCTCCAATCCAA
 |  ||||| |||     || |||||| || || |   |||| ||     ||     | || | |||     || || |  |   ||| ||     |||  |          |  |||||   |||    |||| |||||||| ||||  || |||||||| |||||||| ||||||||||| ||||| || 
tgattgaaaagttgataattattgtga-tcattctcctttcatatagaggaa----atcatatcttgaa---tgtctgaaatatatgttttaaaatgaacctc---------tgcagACAAGCTCTAGTTTAATTGAAGGTCGATGGCAGTTAATGTTCACAACAAGACCCGGAACTGCATCCCCAATTCAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|19878581|gb|AU239412.1|AU239412
EST:     TTGAATCTGCTGTGAAAGTTCTTGAAGGTTTAGAAGGCATTCAAAATCCT                         ACAGATTCTGACCTAATCGAAGGTCGTTGGCGATTGATGTTCACCACAAGA
genomic: TTGAATCTGCTGTGAAAGTTCTTGAAGGTTTAGAAGGCATTCAAAATCCTgtatgaaatg ... aaatgtttagACAGATTCTGACCTAATCGAAGGTCGTTGGCGATTGATGTTCACCACAAGA
EST: gi|124908324|gb|EH982404.1|EH982404
EST:     TTGAATCTGCTGTGAAAGTTCTTGAAGGTTTAGAAGGCATTCAAAATCCT                         ACAGATTCTGACCTAATCGAAGGTCGTTGGCG
genomic: TTGAATCTGCTGTGAAAGTTCTTGAAGGTTTAGAAGGCATTCAAAATCCTgtatgaaatg ... aaatgtttagACAGATTCTGACCTAATCGAAGGTCGTTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgttctttgactcatttggttgtcttttggggaatgttgtttaaatgtttagACAGATTCTGACCTAATCGAAGGTCGTTGGCGATTGATGTTCACCACAAGACCTGGAACTGCATCTCCAATCCAA
       ctttgac  putative branch site (score: 4)
                                       ttgtttaaatgttta  TA-rich tract